Sequence
atgc intronic sequence ATGC exonic sequence...tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g42840.1 (Oryza sativa), 3'ss of exon 3
---------tgtccaatgaaaaatagtcaagtgag--atcctgtggatgcttactttctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
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cataatttgctttctgctaacatcagtcaaacagagaatgatgttgccacataatttgctttctgctaacaacg-agtgcatttctttccctgt----------cttgcagGTATTTGATTTGTTCGATACAAAACACAATGGTATTTTAGGATTCGAAGAATTTGCCCGTGCGCTCTCAGTATTTCATCCAAATGCACCTCTCGACGAGA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA07G39940.1 (Glycine max), 3'ss of exon 4
-----tgtccaatgaaaaatagtcaagtg-agatcctgtggatgcttacttt-ctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
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atatttatgatctgattacaagttagttgcataccgtatacatatggggttaaccttagaatttgtat----ttgtcctgttcatgattttgt-actgtc--tgtagGTGTTTGACTTGTTTGATACAAAGCACAATGGGATACTTGATTTTGAAGAGTTTGCACGTGCTCTCTCTGTCTTTCATCCCAATGCACCAATTGATGATA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA18G08230.1 (Glycine max), 3'ss of exon 5
tgtccaatgaaaaatagtcaagtgagatcctgt--ggatgcttactttctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA-
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tgttta-cgtattatttcaacattatattttgttcaaaaattgattcacaattcaact--tgtgattggaatctaatatgaacttctctctaactctattaggTATTTGATTTATTTGACACAAAGCACAATGGGATACTAGGTTTTGAAGAGTTTGCTCGTGCTCTCTCCGTTTTTCATCCAAATGCCCCTATTGATGATAA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA08G44580.1 (Glycine max), 3'ss of exon 4
--tgtccaatgaaaaatagtcaagtg--agatcctgtggatgcttactttctttccagttagtatgacattgtattgc-tataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
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tatatctgtttacgtatttttcaatattatattttgttcaaaaattgattcacattactccttgtggt-tggtatctcatatgaac-ttctctctaactt---agGTATTTGATTTATTTGACACAAAACACAATGGGATACTGGGTTTTGAAGAGTTTGCTCGTGCTCTCTCCGTTTTCCATCCTAATGCCCCCATTGATGATA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA17G00830.1 (Glycine max), 3'ss of exon 4
----tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
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ttatgatctgattacttaagagttagttgtatgccatatacatatgatgtgaaccttagaatttttat-ttgtcctgttcatgattttgt-actgtt--tgtagGTGTTTGACTTGTTTGATACAAAGCACAACGGGATACTTGATTTTGAAGAGTTTGCACGAGCTCTCTCTGTCTTTCATCCCAATGCACCAATTGATGATA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G55990.1 (Arabidopsis thaliana), 3'ss of exon 5
tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatgacatt-----gtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
|| | | | | || | | | |||| | || || | || | || | | |||| || ||| ||| | || |||| || || || ||||||||||| |||||||| || || || ||||| ||||||||||| || ||||| || ||||| || ||||| || | ||||| |
-------gtaatgtttctttcttcacattataagtgttcttaaacccatttttgtcaagatcaagtttagaagaaatgctgaaata--tgtgattttgtttctagGTTTTCGATTTGTTTGATACAAAGCACAATGGAATACTGGGGTTTGAGGAATTTGCTCGTGCTCTCTCCGTCTTTCACCCAAATGCGCCTATAGATGACA
upper sequence: GRMZM2G112672_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 3
tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatga-cattgtattgctataaccattgtcattgttc-----ttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
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------atgttccttcattagttggcttgtagtcttctttcagttttttcaaaatgagtccaaataaattattcctacaatttatgcctctattcaaatcttgtagGTATTTGACTTGTTTGACACAAAGCACAATGGAATACTAGATTTTGAAGAGTTTGCGCGTGCCCTCTCTGTCTTTCATCCCAATGCACCCATTGAAGACAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|5325037|gb|AI783228.1|AI783228EST: AGTTGGCGCTGTTCAAGACTAATAAGAAGGAAAGTTTGTTTGCTGATCGG GTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAA
genomic: AGCTGGCGCTGTTCAAGACTAATAAGAAGGAAAGTTTGTTTGCTGATCGGgtaaggctac ... gttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
ctataac putative branch site (score: 3)
ttgttctt putative PPT
attgtatt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtccaatgaaaaatagtcaagtgagatcctgtggatgcttactttctttccagttagtatgacattgtattgctataaccattgtcattgttcttgcagGTATTTGACTTATTTGATACAAAACACAATGGGATTCTTGGATTTGAAGAATTTGCTCGGGCGCTCTCAGTATTTCATCCCAATGCTCCCTTGGATGAGA
- - - - -aaaaata
- - - - - - - - - - - - -gatcctg
- - - - - - - - - - - - - - - - tggatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtattg